v18.2.3

Command-line tool

• Fixed an issue with the client hanging on Mac ARM64. See Issue #490. Special thanks to @corneliusroemer for suggesting a solution that we used to fix the bug.
• Updated the taxonomy summary tsv to combine the Domain and Realm ranks in the same column.

v18.2.2

Internal Services

• We’ve made several improvements to our internal systems to ensure better performance and reliability across our services.

v18.2.0

Comparative Genome Viewer links

• Added a link to the Comparative Genome Viewer (CGV) to the genome links endpoint. Links to CGRV are also available from the NCBI Datasets taxonomy and genome pages.

v18.1.0

NCBI Datasets interfaces

• Resolved an issue that was affecting both the web and programmatic interfaces.

v18.0.5

Documentation

• Updated the CheckM analysis documentation for improved clarity and accuracy. View updated CheckM documentation

• Added a table of deprecated API endpoints. See deprecated API list

Genome

• Fixed an issue with the genome annotation table for RefSeq viruses. Example: GCF_009858895.2
• Resolved bugs affecting:
  • Download table requests during taxon search
  • "Select all" functionality in genome downloads

v18.0.2

Services

• Bug Fixes: Fix filtered subtree API endpoint by removing duplicates and showing all nodes below species

v18.0.1

⚠ BREAKING CHANGES

• Taxonomy: Changes to taxonomy rank names will impact requests for the taxa with updated ranks, leading to error responses. The taxa with updated ranks include Viruses, with the new rank, acellular root, and cellular organisms, with the new rank, cellular root. Users are advised to update their command-line tool to the latest version (v18.0.1) to accommodate these new rank-types.

Docs

• Bug Fixes: Update genome notes definitions for genome length too small and genome length too large

v17.3.0

Documentation

• Revised glossary entry for "status".

• Added information on the update frequency for reference genomes.

v17.2.0

Command-line tools

• Bug Fix: Improved handling of genome requests by taxon. Now provides a clearer error message and allows downloads to continue even if a taxon has no associated genomes.
• Bug Fix: Resolved an issue with checksum retrieval that was causing genome downloads to fail in certain cases.
• New Feature: Added a diploid role column to the assembly data report, providing more detailed genomic information.

API documentation

• Deprecation Notice: The Virus genome table endpoint has been deprecated and will be removed in a future release. Refer to our documentation for guidance on building a similar table using the dataformat command-line tool.

v17.1.0

Command-line tools

• Bug Fixes: Removed trailing spaces from BUSCO column names.

Documentation

• Revised glossary to clarify definitions of complete and partial genomes